Locus 1959

Sequence ID 2R_DroMel_CAF1
Location 7,401,277 – 7,401,386
Length 109
Max. P 0.690467
window3239

overview

Window 9

Location 7,401,277 – 7,401,386
Length 109
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 77.83
Mean single sequence MFE -28.47
Consensus MFE -20.98
Energy contribution -20.73
Covariance contribution -0.25
Combinations/Pair 1.35
Mean z-score -1.10
Structure conservation index 0.74
SVM decision value 0.33
SVM RNA-class probability 0.690467
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7401277 109 + 20766785
UGUCUUCAGAUUCGUUCGCAGUAAGCUCCAGCAACCGCUGGGCGCCAAGCCGCAGCUUGCUGACGUUCACCUCCAUCUCAACAGGAUCCACUCAACUGAUUUUUA--AGUG
.....((((....(..((((((((((((((((....)))))(((......)))))))))))).))..)...(((.........))).........))))......--.... ( -31.90)
>DroSec_CAF1 17461 109 + 1
UGUCUUCAGAUUCGUUCGCAGUAAGUUCCAGCAACCGCUGGGCGCCUAGCCGCAGCUUGCUGACGUUCACUUCCAUUUCAACAGGAUCCACUCAACUGAUUUUUA--AGUG
.....((((....(..((((((((((((((((....)))))(((......)))))))))))).))..)...(((.........))).........))))......--.... ( -29.60)
>DroSim_CAF1 8889 109 + 1
UGUCUUCAGAUUCGUUCGCAGUAAGUUCCAGCAACCGCUGGGCGCCUAGCCGCAGCUUGCUGACGUUCACCUCCAUUUCAACAGGAUCCACUCAACUGAUUUUUA--AGGG
.....((((....(..((((((((((((((((....)))))(((......)))))))))))).))..)...(((.........))).........))))......--.... ( -29.50)
>DroEre_CAF1 17241 97 + 1
UGUCUUCAGACUCGUUUGCAGUAAGUUCCAGCAACCGCUGAGCGCCAAGCCGCAGCUUACUGGCAUUUACUUCCAUCUCAACAGAAUCCACUCAAUU--------------
.(((....)))..((.(((((((((((.((((....)))).(((......))))))))))).)))...))...........................-------------- ( -21.60)
>DroYak_CAF1 15825 97 + 1
UGUCUUCGGACUCGUUUGCAGUAAGUUCCAGCAACCGCUGGGCGCCAAGCCGCAGCUUACUGGCAUUCACUUCCAUCUCAACAGGAUCCACUCAAUA--------------
.(((....)))..(..((((((((((((((((....)))))(((......))))))))))).)))..)...(((.........)))...........-------------- ( -29.90)
>DroPer_CAF1 18137 111 + 1
UGUCUUGGGGCUCGUUGGCAGUCAACUGCAGAAGUCGCUGUGCACAGAAUCGUAGCUUGCUGGCAUUUACCUCCAUUGCCUUGGUAGCCGGUCAACUGUAUUCGGAUACUG
.((..(((((.....((.(((.(((((((.((.....(((....)))..)))))).)))))).)).....)))))..))...((((.((((..........)))).)))). ( -28.30)
>consensus
UGUCUUCAGACUCGUUCGCAGUAAGUUCCAGCAACCGCUGGGCGCCAAGCCGCAGCUUGCUGACAUUCACCUCCAUCUCAACAGGAUCCACUCAACUGAUUUUUA__AGUG
.(((....)))..(..((((((((((((((((....)))))(((......)))))))))))).))..)........................................... (-20.98 = -20.73 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:23 2006